Workflow: expression values from HPC RGD workflow (processed before workflow 2.1); computed sex, strand and library prep added by RGD attribute backfill 1.0 (2026-10-21) using the workflow 2.1 rules. Note: ComputedSex is called from sex-gene expression: R = (Xist TPM + 1) / (median TPM of Uty, Ddx3y, Kdm5d and Eif2s3y + 1); R >= 10 is called F, R <= 1 is called M, and other values, or samples where Xist and the Y-gene median are both below 1 TPM, are Undetermined. Females express Xist and males the Y-linked genes. Sry is reported but not used in the calculation. XYRatio (X:Y read coverage) is shown for reference only. Agreement compares ComputedSex with InputSex (submitted to GEO).
SampleID	InputSex	ComputedSex	XYRatio	Agreement	Xist	Uty	Sry	Ddx3y	Kdm5d	Eif2s3y	ComputedStrand	ComputedLibraryPrep	PctMRNA	PctIntronic	PctIntergenic	PctRibosomal	UniqPct	MultiPct	TooShortPct	NonPolyA_perM	LibraryPrepRule	LibraryPrepQC	LibraryPrepReason
GSM3619616	M	M	NA	Agree	0.42	7.88	0.00	65.11	24.03	50.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.769781	0.182331	0.045169	0.002718	86.97	3.19	9.49	256	LP2 (2026-09-30)	PASS	NonPolyA_perM 256 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619617	M	M	NA	Agree	0.78	13.32	0.00	95.35	36.34	56.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.704475	0.24597	0.04869	0.000865	87.22	2.54	9.86	335	LP2 (2026-09-30)	PASS	NonPolyA_perM 335 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619618	M	M	NA	Agree	0.38	9.85	0.00	70.95	29.83	53.07	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.766151	0.185503	0.046698	0.001648	87.17	3.03	9.48	297	LP2 (2026-09-30)	PASS	NonPolyA_perM 297 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619619	M	M	NA	Agree	0.12	5.52	0.00	40.79	16.47	44.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.834692	0.115322	0.04665	0.003335	86.20	4.03	9.47	259	LP2 (2026-09-30)	PASS	NonPolyA_perM 259 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619620	M	M	NA	Agree	0.20	6.49	0.00	56.37	24.32	50.60	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.803031	0.150928	0.044665	0.001375	88.67	3.13	7.89	256	LP2 (2026-09-30)	PASS	NonPolyA_perM 256 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619621	M	M	NA	Agree	0.10	4.61	0.00	32.82	10.87	48.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.862028	0.088007	0.043952	0.006013	86.11	4.68	8.90	228	LP2 (2026-09-30)	PASS	NonPolyA_perM 228 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619622	M	M	NA	Agree	0.11	7.57	0.00	53.47	19.46	56.17	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.840211	0.113273	0.044652	0.001863	87.93	3.64	8.13	213	LP2 (2026-09-30)	PASS	NonPolyA_perM 213 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619623	M	M	NA	Agree	0.52	11.17	0.00	79.06	30.18	59.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.763931	0.189261	0.045845	0.000964	89.19	2.76	7.71	234	LP2 (2026-09-30)	PASS	NonPolyA_perM 234 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619624	M	M	NA	Agree	0.17	7.09	0.00	51.37	19.95	52.69	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.829843	0.120068	0.047543	0.002546	83.46	3.86	12.37	261	LP2 (2026-09-30)	PASS	NonPolyA_perM 261 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619625	M	M	NA	Agree	0.73	10.84	0.00	73.86	29.39	59.66	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.728941	0.221141	0.048489	0.001429	85.00	2.92	11.74	292	LP2 (2026-09-30)	PASS	NonPolyA_perM 292 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619626	M	M	NA	Agree	0.11	6.10	0.00	39.21	11.65	47.99	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.853544	0.08963	0.048474	0.008352	84.00	5.26	10.41	252	LP2 (2026-09-30)	PASS	NonPolyA_perM 252 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619627	M	M	NA	Agree	0.14	6.94	0.00	53.68	20.11	49.79	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.823438	0.126658	0.046508	0.003397	85.43	3.90	10.36	234	LP2 (2026-09-30)	PASS	NonPolyA_perM 234 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619628	M	M	NA	Agree	0.16	8.22	0.00	58.89	22.75	51.60	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.81298	0.139348	0.046533	0.001139	85.31	3.54	10.84	289	LP2 (2026-09-30)	PASS	NonPolyA_perM 289 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619629	M	M	NA	Agree	0.51	8.99	0.00	70.60	27.54	53.25	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.749109	0.200475	0.048206	0.002211	87.74	3.11	8.81	309	LP2 (2026-09-30)	PASS	NonPolyA_perM 309 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619630	M	M	NA	Agree	0.48	9.72	0.00	78.33	31.94	54.67	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.763433	0.187855	0.048004	0.000708	86.41	2.83	10.41	279	LP2 (2026-09-30)	PASS	NonPolyA_perM 279 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619631	M	M	NA	Agree	0.35	10.27	0.00	69.62	29.05	49.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.802312	0.149366	0.0479	0.000422	82.19	3.04	14.44	241	LP2 (2026-09-30)	PASS	NonPolyA_perM 241 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619632	M	M	NA	Agree	0.14	7.27	0.00	53.07	24.58	52.71	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811058	0.141017	0.047001	0.000924	87.47	3.34	8.87	272	LP2 (2026-09-30)	PASS	NonPolyA_perM 272 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619633	M	M	NA	Agree	0.46	11.32	0.00	67.79	26.97	57.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.767601	0.185182	0.046503	0.000715	87.95	2.88	8.85	267	LP2 (2026-09-30)	PASS	NonPolyA_perM 267 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619634	M	M	NA	Agree	0.30	10.56	0.00	65.63	28.22	59.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.784096	0.168833	0.046282	0.000788	88.62	2.80	8.27	250	LP2 (2026-09-30)	PASS	NonPolyA_perM 250 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619635	M	M	NA	Agree	0.12	4.33	0.00	32.71	13.42	47.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.856058	0.095247	0.045995	0.002701	86.32	4.13	9.24	216	LP2 (2026-09-30)	PASS	NonPolyA_perM 216 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619637	M	M	NA	Agree	0.12	4.42	0.00	12.84	7.23	66.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.964822	0.017659	0.015772	0.001747	89.09	1.06	9.74	19	LP2 (2026-09-30)	PASS	NonPolyA_perM 19 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619638	M	M	NA	Agree	0.00	4.53	0.00	16.12	5.04	44.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.968042	0.016589	0.008764	0.006604	89.31	1.40	9.22	16	LP2 (2026-09-30)	PASS	NonPolyA_perM 16 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619639	M	M	NA	Agree	0.02	6.19	0.00	28.85	11.51	99.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.950657	0.028967	0.017672	0.002704	88.03	1.30	10.54	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619640	M	M	NA	Agree	0.02	5.19	0.00	19.92	9.26	76.74	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.928116	0.039002	0.028369	0.004513	85.24	2.37	12.16	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619641	M	M	NA	Agree	0.00	5.98	0.00	20.30	10.17	64.52	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.965599	0.021112	0.011976	0.001314	88.79	0.95	10.16	16	LP2 (2026-09-30)	PASS	NonPolyA_perM 16 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619642	M	M	NA	Agree	0.01	6.53	0.00	26.07	10.91	105.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.927006	0.04037	0.031503	0.001122	86.90	2.02	10.87	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619643	M	M	NA	Agree	0.00	5.06	0.00	19.21	7.30	93.26	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912473	0.048002	0.034923	0.004603	84.37	2.52	12.82	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619644	M	M	NA	Agree	0.00	4.69	0.00	22.03	9.08	140.41	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911851	0.043345	0.040437	0.004367	84.21	2.51	13.05	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619645	M	M	NA	Agree	0.00	4.07	0.00	14.30	6.79	80.95	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.932221	0.034501	0.03105	0.002228	80.76	2.11	16.90	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619646	M	M	NA	Agree	0.00	6.56	0.00	26.65	14.43	89.68	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.946072	0.032421	0.020738	0.00077	86.67	1.30	11.87	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619647	M	M	NA	Agree	0.00	8.39	0.00	25.14	11.43	88.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.957593	0.0261	0.015671	0.000636	85.25	1.03	13.60	23	LP2 (2026-09-30)	PASS	NonPolyA_perM 23 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619648	M	M	NA	Agree	0.00	2.25	0.00	6.23	3.28	38.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.975421	0.011712	0.011834	0.001033	81.27	0.92	17.70	15	LP2 (2026-09-30)	PASS	NonPolyA_perM 15 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619649	M	M	NA	Agree	0.00	2.03	0.00	14.38	7.43	47.08	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.966492	0.017547	0.014663	0.001298	88.68	1.23	9.94	23	LP2 (2026-09-30)	PASS	NonPolyA_perM 23 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619650	M	M	NA	Agree	0.00	5.03	0.00	13.78	7.22	47.75	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.936986	0.038382	0.023516	0.001115	87.81	1.55	10.38	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619651	M	M	NA	Agree	0.00	2.05	0.00	14.68	5.66	23.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.904161	0.046434	0.032943	0.016462	81.42	3.74	14.47	76	LP2 (2026-09-30)	PASS	NonPolyA_perM 76 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619652	M	M	NA	Agree	0.00	1.45	0.00	12.13	7.05	52.72	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.896372	0.047168	0.044246	0.012214	83.89	2.74	13.14	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619653	M	M	NA	Agree	0.02	4.13	0.00	13.81	5.87	44.63	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.960084	0.019145	0.01568	0.00509	86.70	1.58	11.57	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619654	M	M	NA	Agree	0.00	4.49	0.00	16.63	8.47	57.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.952406	0.02416	0.022137	0.001297	86.68	1.50	11.64	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3619655	M	M	NA	Agree	0.00	1.82	0.00	10.90	3.45	43.06	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.927328	0.032359	0.035936	0.004377	73.64	2.13	23.98	43	LP2 (2026-09-30)	PASS	NonPolyA_perM 43 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does